Sequence
atgc intronic sequence ATGC exonic sequence...aaatgtaacattacaattttttctttatatttttctcagtttcccaacaaccaaatagaggttcagttagttttccttcaacttgtaagttcaatttcagGGTTGTGGTGGATTATATTGCTGCGAGCATATGGAAAATGTTCTGGAGATCTTTCAGTTCAGGAGAGATTTGATGTGCAAACTGGAATCAAGATGATTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g33490.1 (Oryza sativa), 3'ss of exon 2
aaatgtaacattacaattttttctttatatttttctcagtttcccaacaaccaaatagaggttcagttagttttccttcaacttgtaagttcaatttcagGGTTGTGGTGGATTATATTGCTGCGAGCATATGGAAAATGTTCTGGAGATCTTTCAGTTCAGGAGAGATTTGATGTGCAAACTGGAATCAAGATGATTTT
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----gtgggtatagatgacgttccttat----ctcctattttgcgcacagc---ataaagatgtggc-------------actttaacaatggttttcagGTTTATGGTGGATCATATTGCTGAGAGCATACGGAAAATGTTCAGGCGATCTGTCGGTTCAGGAGAGAATTGATGTCCAGACTGGAATAAAGATGATCTT
upper sequence: Vv06s0061g01520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g32730.1 (Oryza sativa), 3'ss of exon 3
aaatgtaacattacaattttttctttatatttttctcagtttcccaacaaccaaatagaggttcagttagttttccttcaacttgtaagtt-caatttcagGGTTGTGGTGGATTATATTGCTGCGAGCATATGGAAAATGTTCTGGAGATCTTTCAGTTCAGGAGAGATTTGATGTGCAAACTGGAATCAAGATGATTTT
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----gtagagctactaatggagatagctagcacatcctcttttttgctactctgct-----tctactaactcttaactggatatgtgattgatggtttcagGTCTATGGTGGATCATATTACTTAGGGCGTATGGAAAGTGTTCAGGAGATCTGACAGTTCAGGAGAGAATTGATGTTCAGACTGGAATTAAAATGATATT
upper sequence: Vv06s0061g01520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G040843_T02 (Zea mays), 3'ss of exon 3
aaatgtaacatt-acaattt-tttctttatatttttctcagtttcccaacaaccaaatagaggttcagttagttttccttcaacttgtaagttcaatttcagGGTTGTGGTGGATTATATTGCTGCGAGCATATGGAAAATGTTCTGGAGATCTTTCAGTTCAGGAGAGATTTGATGTGCAAACTGGAATCAAGATGATTTT
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----gtaatgttgataatgggtttggttgtttttgttttggctactctgcattcc--------ctgctttaattttggtacctgataaaaactgggcttcagGTCTATGGTGGATCATATTGCTGAGGGCATACGGAAAATGTTCAGGGGATCTGTCAGTACAAGAGAGAATTGATGTCCAGACCGGAATGAAAATGATTCT
upper sequence: Vv06s0061g01520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G22510.1 (Arabidopsis thaliana), 3'ss of exon 3
aaatgtaacattacaattttttctttatatttttctcagtttcccaacaaccaaatagaggttcagttagttttccttcaacttgtaagttcaatttcagGGTTGTGGTGGATTATATTGCTGCGAGCATATGGAAAATGTTCTGGAGATCTTTCAGTTCAGGAGAGATTTGATGTGCAAACTGGAATCAAGATGATTTT
| | | || || | | | | | ||| | | || ||| || | | ||||| || ||| | ||||||| |||||||||||||| ||| || |||||||||||||||| |||| |||||||| || ||||| ||| |||||||||| ||||||||||||||||| ||
gtaagagaagtttcagatccctatgtgaaaaggactctggtataaaataactaact-----------cacttttcatttgttttggat------tttcagGCTTGTGGTGGATTATTTTGTTGAGAGCATATGGAAAATGCACTGGTGATCTTTCCGTGCAGGAAAGAGTTGATGTGCAGACTGGAATCAAGATGATCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacaaccaaatagaggttcagttagttttccttcaacttgtaagttcaatttcagGGTTGTGGTGGATTATATTGCTGCGAGCATATGGAAAATGTTCTGGAGATCTTTCAGTTCAGGAGAGATTTGATGTGCAAACTGGAATCAAGATGATTTT
ttagtttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatgtaacattacaattttttctttatatttttctcagtttcccaacaaccaaatagaggttcagttagttttccttcaacttgtaagttcaatttcagGGTTGTGGTGGATTATATTGCTGCGAGCATATGGAAAATGTTCTGGAGATCTTTCAGTTCAGGAGAGATTTGATGTGCAAACTGGAATCAAGATGATTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
aaatgtaa
- - - - - - - - - - - - - - - - - - - - - -ccaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - aaataga